Sequence
atgc intronic sequence ATGC exonic sequence...agttgttgtcaaaattgaatttcttgtttgtagacattcctcttcaacgttggctgtctcataatatcaaggattctttctcattcttgtgtttttccagGATCATGGAGAGGACAATTTTGCAATTGTGTTTGCAGCTATGGGTGTGAACATGGAGACAGCTCAGTTCTTCAAGCGAGATTTTGAAGAAAATGGATCAA
Basic information
species | Arabidopsis thaliana |
transcript | AT1G76030.1 |
intron # | 7 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT1G76030.1 (Arabidopsis thaliana), 3'ss of exon 7
lower sequence: LOC_Os06g37180.1 (Oryza sativa), 3'ss of exon 7
-agttgttgtcaaaattgaatttcttgtttgtagacattcctcttcaacgttggctgtctcataatatcaaggattcttt-ctcattcttgtgtttttccagGATCATGGAGAGGACAATTTTGCAATTGTGTTTGCAGCTATGGGTGTGAACATGGAGACAGCTCAGTTCTTCAAGCGAGATTTTGAAGAAAATGGATCAA
| | | | | | | || | |||| | |||| || || || || |||| | || ||| || ||| | | | |||||| | || ||| ||||| ||||| || |||||||| |||||||| ||||| ||||| ||||| || |||||||| || ||||||||||| || || ||||
atggtatgctgtagagcaatttacctgttcattttt-ttccatggagacattt-ttgcatcgctgaatcactgcttatttgctgattacttttaatctccagGGTGGTGAAGATGACAACTTTGCTATCGTGTTTGCTGCTATGGGAGTGAATATGGAAACAGCCCAATTCTTCAAACGTGATTTTGAAGAGAACGGGTCAA
upper sequence: AT1G76030.1 (Arabidopsis thaliana), 3'ss of exon 7
lower sequence: GRMZM2G094497_T01 (Zea mays), 3'ss of exon 7
agttgttgtcaaaattgaatttcttgtttgtagacattcctcttcaacgttggct----gtctcataatat----caaggattctttctcattcttgtgtttttccagGATCATGGAGAGGACAATTTTGCAATTGTGTTTGCAGCTATGGGTGTGAACATGGAGACAGCTCAGTTCTTCAAGCGAGATTTTGAAGAAAATGGATCAA
| ||| || | | ||| | | |||| | || || ||| | || ||||| || | | |||| ||| |||| | | ||| | || ||| ||||| ||||| ||||||||||| |||||||| ||||||||||| |||||||| |||||||| || ||||||||||| ||||| || |
---tactgt-aaggtcaacattcatatg---gagcattgtgtattaatgtatgctttacatgtctaaatatggcttaatcactgcttctgatttttgtaacctgc-agGGTGGTGAAGATGACAACTTTGCTATTGTGTTTGCTGCTATGGGAGTGAACATGGAAACAGCTCAATTCTTCAAACGTGATTTTGAAGAGAATGGTTCCA
upper sequence: AT1G76030.1 (Arabidopsis thaliana), 3'ss of exon 7
lower sequence: GRMZM2G181151_T02 (Zea mays), 3'ss of exon 7
agttgttgtcaaaattgaatttcttgtttgtagacattcctcttcaacgttggctgtctcataatatcaaggattc-tttctcattcttgtgtttttcc----agGATCATGGAGAGGACAATTTTGCAATTGTGTTTGCAGCTATGGGTGTGAACATGGAGACAGCTCAGTTCTTCAAGCGAGATTTTGAAGAAAATGGATCAA
|| ||| | |||| | || || | | |||| || | | | || |||| || | || |||| | || || | ||| | || ||| ||||| ||||| ||||||||||| |||||||| ||||||||||| |||||||| |||||||| || ||||||||||| || || || |
--ttcctgtgaggtcaacattt---atatggaggattgtgtattcatgtatgctttacatgtcttaataaggcttagtcactggttctgattttattacctgcagGGTGGTGAAGATGACAACTTTGCTATTGTGTTTGCTGCTATGGGAGTGAACATGGAAACAGCTCAATTCTTCAAACGTGATTTTGAAGAGAACGGTTCCA
upper sequence: AT1G76030.1 (Arabidopsis thaliana), 3'ss of exon 7
lower sequence: Vv18s0001g01020.t01 (Vitis vinifera), 3'ss of exon 7
agttgttgtcaaaattgaatttcttgtttgtagacattcctcttcaacgttggct--gtctcataatatcaaggattctttctcattcttgtgtt---tttccagGATCATGGAGAGGACAATTTTGCAATTGTGTTTGCAGCTATGGGTGTGAACATGGAGACAGCTCAGTTCTTCAAGCGAGATTTTGAAGAAAATGGATCAA
|| | | | ||||| || | | || | || | ||| || | | | | | | | | | ||| || ||| ||||| | | |||||||||||| || || || ||||| |||||||| || |||||||| ||||| || || || ||||| |||||||| ||||||||||| |
-----ccgttcatttctgtcctaccctttgtccacttctgttttatatttttcttttatctgattaaaatatgtaattctcatattatttgccttgagtttatagGATGAGGTAGAGGACAATTTCGCCATCGTCTTTGCTGCTATGGGAGTAAACATGGAAACAGCACAATTTTTTAAGCGTGATTTTGAGGAAAATGGATCCA
upper sequence: AT1G76030.1 (Arabidopsis thaliana), 3'ss of exon 7
lower sequence: PP1S100_117V6.1 (Physcomitrella patens), 3'ss of exon 7
----agttgttgtcaaaattgaatttcttgtttgtagacattcctcttcaacgttggctgtctcataatatcaa--ggattctttctcattcttgtgtttttccagGATCATGGAGAGGACAATTTTGCAATTGTGTTTGCAGCTATGGGTGTGAACATGGAGACAGCTCAGTTCTTCAAGCGAGATTTTGAAGAAAATGGATCAA
|| |||| || | | ||| ||| | || || | | ||| | | | | || | || || | | | | | || || || || |||||||| ||||| |||||||||||||| || ||||||||||||||| |||||||| || ||||| || ||||| || |
cctaagcatttgttct--tttattggtttggttg-ataccttttctataagcgtggaaggctcctgagtaatgataaaatgtgttggcgtgttccttcgacagGATGAACACGGCGAAGACAATTTCTGTATTGTTTTTGCAGCTATGGGAGTTAACATGGAGACAGCTACCTTCTTCAAACGTGATTTCGAGGAAAACGGGT---
upper sequence: AT1G76030.1 (Arabidopsis thaliana), 3'ss of exon 7
lower sequence: PP1S425_12V6.1 (Physcomitrella patens), 3'ss of exon 6
agttgttgtcaaaattgaatttcttgtttgtagacattcctcttcaacgttggctgtctcataatatcaaggattctttctcattcttgtgtttttccagGATCATGGAGAGGACAATTTTGCAATTGTGTTTGCAGCTATGGGTGTGAACATGGAGACAGCTCAGTTCTTCAAGCGAGATTTTGAAGAAAATGGATCAA-----------------------------
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------------------------------------------------------------------------------------------------------gcccggtgaagacaacttttgtatcgttttcgctgctatgggagTTAACATGGAGACAGCTACTTTCTTCAAACGTGATTTCGAAGAAAATGGATCTATGGAGAGAGTGACACTTTTTCTCAACTTG
upper sequence: AT1G76030.1 (Arabidopsis thaliana), 3'ss of exon 7
lower sequence: EFJ11911 (Selaginella moellendorffii), 3'ss of exon 6
agttgttgtcaaaattgaatttcttgtttgtagacattcctcttcaacgttggctgtctcataatatcaaggattctttctcattcttgtgtttttccagGATCATGGAGAGGACAATTTTGCAATTGTGTTTGCAGCTATGGGTGTGAACATGGAGACAGCTCAGTTCTTCAAGCGAGATTTTGAAGAAAATGGATCAA
||| | | ||| || || | | | || | | | | | || | |||| | ||| || ||||| |||||||| || ||||||||||||||||||||||||||||| || ||||| ||||| | |||||||| ||||||||||| |
-------------------------------gtacaattgttttccgt-ttatcttctgtctgttgttgagactgatgagtttctttcgtat----ccagCGTGATGTTGAAGACAACTTTGCAATCGTCTTTGCAGCTATGGGTGTGAACATGGAGACTGCACAGTTTTTCAAAAGGGATTTTGAGGAAAATGGATCGA
upper sequence: AT1G76030.1 (Arabidopsis thaliana), 3'ss of exon 7
lower sequence: EFJ13375 (Selaginella moellendorffii), 3'ss of exon 6
agttgttgtcaaaattgaatttcttgtttgtagacattcctcttcaacgttggctgtct-cataatatcaaggattctttctcattcttgtgtttttccagGATCATGGAGAGGACAATTTTGCAATTGTGTTTGCAGCTATGGGTGTGAACATGGAGACAGCTCAGTTCTTCAAGCGAGATTTTGAAGAAAATGGATCAA
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---------------------------------gtacttttgttttccgtttatcttctgtctgttgttgagactgatgagtttctttcgtat----ccagCGTGATGTTGAAGACAACTTTGCAATCGTCTTTGCAGCTATGGGTGTGAACATGGAGACTGCACAGTTTTTCAAAAGAGATTTTGAGGAAAATGGATCGAMapped 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|86066844|gb|DR362601.1|DR362601EST: GTCAGGCTGGTCTAGTCAAGCGTTTGGAAAAGACTGTTGATCTACTTGAG GATCATGGAGAGGACAATTTTGCAATTGTGTTTGCAGCTATGGGTGTGAAC
genomic: GTCAGGCTGGTCTAGTCAAGCGTTTGGAAAAGACTGTTGATCTACTTGAGgtaatccttt ... gtttttccagGATCATGGAGAGGACAATTTTGCAATTGTGTTTGCAGCTATGGGTGTGAAC
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.aacgttggctgtctcataatatcaaggattctttctcattcttgtgtttttccagGATCATGGAGAGGACAATTTTGCAATTGTGTTTGCAGCTATGGGTGTGAACATGGAGACAGCTCAGTTCTTCAAGCGAGATTTTGAAGAAAATGGATCAA
ttctttctcattcttg CT-rich tract
ataatatcaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
agttgttgtcaaaattgaatttcttgtttgtagacattcctcttcaacgttggctgtctcataatatcaaggattctttctcattcttgtgtttttccagGATCATGGAGAGGACAATTTTGCAATTGTGTTTGCAGCTATGGGTGTGAACATGGAGACAGCTCAGTTCTTCAAGCGAGATTTTGAAGAAAATGGATCAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CATGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGCTC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAA
- - - -gtcaaaa
- - - - - - - - - - - - tgtttgt
- - - - - - - - - - - - - - - - - - - cctcttc