Sequence
atgc intronic sequence ATGC exonic sequencegtaagtctctaaatattgaactccgcctttttagtcatccgttttaccattaggattactaatgaatgtactttgatgctgagttttggaatccttatcctctttaccagAAAATCGGGTATGACAATGCTGCAGCAGTTGCCAAGAAAGCTCACAAAGAAGGATGTACATTGAAG
Basic information
species | Arabidopsis thaliana |
transcript | AT2G47510.2 |
intron # | 16 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT2G47510.1 (Arabidopsis thaliana), 3'ss of exon 16
lower sequence: LOC_Os03g21950.1 (Oryza sativa), 3'ss of exon 15
gtaagtctctaaatattgaactccgcctttttagtcatccgttttaccattaggattactaatgaatgtactttgatgc-tgagttttggaatccttatcctctttaccagAAAATCGGGTATGACAATGCTGCAGCAGTTGCCAAGAAAGCTCACAAAGAAGGATGTACATTGAAG
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-----------gtaagtgaaattcatccattttgtagcc----ttacatttatcttttctattacatctgctttcgtgagtgcatacttaattctatttaataaatgc-agAAAATTGGCTATGACAATGCTGCAGCTGTTGCTAAGAAAGCACACAAAGAAGGAAGCACATTGAAG
upper sequence: AT2G47510.1 (Arabidopsis thaliana), 3'ss of exon 16
lower sequence: GRMZM2G010823_T01 (Zea mays), 3'ss of exon 15
gtaagtctctaaatattgaactccgcctttttagtcatccgttttaccattaggattactaatgaatgtactttgatgctgagttttggaatccttatcctctttaccagAAAATCGGGTATGACAATGCTGCAGCAGTTGCCAAGAAAGCTCACAAAGAAGGATGTACATTGAAG
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gtaagt----aaaatgaaaatttaccttttttaaatatctgttt-gtggttgtaaaaagtagtgagcc-------atgcttactttttgaacgattg----------cagAAAATTGGCTATGACAATGCTGCAGCTGTTGCTAAGAAAGCCCACAAAGAAGGAACCACGTTGAAG
upper sequence: AT2G47510.1 (Arabidopsis thaliana), 3'ss of exon 16
lower sequence: GLYMA02G01930.2 (Glycine max), 3'ss of exon 15
gtaagtctctaaatattgaactccgcctttttagtcatccgttttaccattaggattactaatgaatgtactttgatgctgagttttggaatccttatcctctttaccagAAAATCGGGTATGACAATGCTGCAGCAGTTGCCAAGAAAGCTCACAAAGAAGGATGTACATTGAAG
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-------------------------------gtttcctctattttactcctgaaacttcct-tgttttcacattcttttgaaact---gaagttaatttgactgttccagAAAATCGGTTATGACAAGGCAGCAACAGTTGCCAAGACAGCTCACAAAGAGGGGACTACTCTTAAG
upper sequence: AT2G47510.1 (Arabidopsis thaliana), 3'ss of exon 16
lower sequence: GLYMA02G01930.1 (Glycine max), 3'ss of exon 15
gtaagtctctaaatattgaactccgcctttttagtcatccgttttaccattaggattactaatgaatgtactttgatgctgagttttggaatccttatcctctttaccagAAAATCGGGTATGACAATGCTGCAGCAGTTGCCAAGAAAGCTCACAAAGAAGGATGTACATTGAAG
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---------------------------gtaagtttcctctattttactcctgaaacttcct-tgttttcacattcttttgaaact---gaagttaatttgactgttccagAAAATCGGTTATGACAAGGCAGCAACAGTTGCCAAGACAGCTCACAAAGAGGGGACTACTCTTAAG
upper sequence: AT2G47510.1 (Arabidopsis thaliana), 3'ss of exon 16
lower sequence: GLYMA10G02040.2 (Glycine max), 3'ss of exon 15
gtaagtctctaaatattgaactccgcctttttagtcatccgttttaccattaggattactaatgaatgtactttgatgctgagttttggaatccttatcctctttaccagAAAATCGGGTATGACAATGCTGCAGCAGTTGCCAAGAAAGCTCACAAAGAAGGATGTACATTGAAG----------------------------------
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------------------------------gtaagtgtcctcttgtctacttttgtaacttgctaattttcacatttttttaaaaactgaatttaatttgtctgttccagAAAATTGGTTATGACAAGGCAGCAGCAGTTGCCAAGACAGCCCACAAAGAGGGGTGTACTCTTAAGGTGATGATGCCATGTTATACTTGTTTTTCCGTTT
upper sequence: AT2G47510.1 (Arabidopsis thaliana), 3'ss of exon 16
lower sequence: GLYMA10G02040.1 (Glycine max), 3'ss of exon 15
gtaagtctctaaatattgaactccgcctttttagtcatccgttttaccattaggattactaatgaatgtactttgatgctgagttttggaatccttatcctctttaccagAAAATCGGGTATGACAATGCTGCAGCAGTTGCCAAGAAAGCTCACAAAGAAGGATGTACATTGAAG
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------------------------------gtaagtgtcctcttgtctacttttgtaacttgctaattttcacatttttttaaaaactgaatttaatttgtctgttccagAAAATTGGTTATGACAAGGCAGCAGCAGTTGCCAAGACAGCCCACAAAGAGGGGTGTACTCTTAAG
upper sequence: AT2G47510.1 (Arabidopsis thaliana), 3'ss of exon 16
lower sequence: GLYMA02G01920.1 (Glycine max), 3'ss of exon 15
gtaagtctctaaatattgaactccgcctttttagtcatccgttttaccattaggattactaatgaatgtactttgatgctgagttttggaatccttatcctctttaccagAAAATCGGGTATGACAATGCTGCAGCAGTTGCCAAGAAAGCTCACAAAGAAGGATGTACATTGAAG
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------------------------------gtaagtgtcctcttgtcttctccggtaacttgctaattttcacatattttttaaac-ggaattgaatttgcctgtttcagAAAATTGGTTATGACAAGGCAGCAGCAGTTGCCAAGACAGCCCACAAAGAGGGGTGTACTCTTAAG
upper sequence: AT2G47510.1 (Arabidopsis thaliana), 3'ss of exon 16
lower sequence: Vv14s0060g01700.t01 (Vitis vinifera), 3'ss of exon 13
-----------------------gtaagtctctaaatattgaactccg--cctttttagtcatccgttttaccattaggattactaatgaatgtactttgatgctgagttttg---gaatccttatcctctttaccagAAAATCGGGTATGACAATGCTGCAGCAGTTGCCAAGAAAGCTCACAAAGAAGGATGTACATTGAAG
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gtgagtgtttttcctccgccatcatttgtttaatcatcttaagattcagtccattttatttttaaattttccttctctgcctact--tgtgttggatgtggcaatggattttgatcgactttttacttcatgaaccagAAAATCGGCTATGATAATGCTGCAGCGGTTGCCAAGAAAGCTCACAAGGAGGGAACCACTCTTAAG
upper sequence: AT2G47510.1 (Arabidopsis thaliana), 3'ss of exon 16
lower sequence: PP1S9_243V6.1 (Physcomitrella patens), 3'ss of exon 15
--------------------------------------------gtaagtctctaaatattgaactccgcctttttagtcatccgttttaccattaggattactaatgaatgtactttgatgctgagttttggaatccttatcctctttaccagAAAATCGGGTATGACAATGCTGCAGCAGTTGCCAAGAAAGCTCACAAAGAAGGATGTACATTGAAG
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gtaagtaatctcaggtttttgctggtttagctagacgggcatttgttattgttgtaaaagggaatttcat-tgtgtagaattgtcttgtaaggtagtgtaggtgggtacatgcgttttgcatctgacatttttgaatgttctattattgggcagAAAATTGGTTATGACAAGGCCGCAGCGTGCGCCAAGAAAGCTCACAAAGAAGGAACTACACTGAAG
upper sequence: AT2G47510.1 (Arabidopsis thaliana), 3'ss of exon 16
lower sequence: PP1S49_154V6.1 (Physcomitrella patens), 3'ss of exon 15
---------------------------------------------------gtaagtctctaaa-------tattgaactccgcctttttagtcatccgttttaccattaggat-tactaa---tgaatgtacttt---gatgctgagttttggaatccttatcctctttaccagAAAATCGGGTATGACAATGCTGCAGCAGTTGCCAAGAAAGCTCACAAAGAAGGATGTACATTGAAG
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gtaagttcacttgccttctttttgtgcgtttaattaagttggacggctgctattattttgaaaggagattttattgctctatgcgtttggggttgtcttgatgagtacaattgtgtgctgagtgtggacattctctccggaagtggcattgctgatttcat-tcttgttgggcagAAAATTGGTTATGACAAAGCTGCAGCATGTGCGAAGAAAGCTCACAAAGAAGGGACTACATTGAAGMapped EST sequences
Showing partial alignments of ESTs and genomic sequences. See full alignments
ATGC EST sequence
ATGC genomic sequence (exon)
ATGC genomic sequence (truncated intron)
EST:
gi|124905456|gb|EH979536.1|EH979536EST: TCTCTTATGCTTGTGACATCATTGAATCCG AAAATCGGGTATGACAATGCTGCAGCAGTTGCCAAGAA
genomic: TCTCTTATGCTTGTGACATCATTGAATCCGgtaagtctct ... tctttaccagAAAATCGGGTATGACAATGCTGCAGCAGTTGCCAAGAA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttactaatgaatgtactttgatgctgagttttggaatccttatcctctttaccagAAAATCGGGTATGACAATGCTGCAGCAGTTGCCAAGAAAGCTCACAAAGAAGGATGTACATTGAAG
tccttatcctctttac CT-rich tract
aatgaat TA-rich tract
Putative cis-regulatory sequences
atgc | intron | ATGC | exonic elements by Pertea et al. |
ATGC | exon | atgc | putative intronic elements |
| | ATGC | putative exonic elements identified for retained introns |
10 20 30 40 50 60 70 80 90 100 110 120 130 140 150 160 170 180 190 200 210 220
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaagtctctaaatattgaactccgcctttttagtcatccgttttaccattaggattactaatgaatgtactttgatgctgagttttggaatccttatcctctttaccagAAAATCGGGTATGACAATGCTGCAGCAGTTGCCAAGAAAGCTCACAAAGAAGGATGTACATTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ATGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGCTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGAAG