Sequence
atgc intronic sequence ATGC exonic sequencegtcaatattggactaaactttatttttttccctgtaaatctgattattgtgaatgcagattttattaaacatgttacacattggaaatcatattatgacttatttcttctaaaaacttattaaatactttaatctgagtgcctgaaagggctctggtggaatgtttctttctttcaacagGTGTGTTAGATTTGCAACAGAGGTTGCTGGGGTTCAGGATCTTGGCATGTTAGGTCGTGGCAGTGGAGAGGAGATTGGAACATATGTTGAAAAACTTTTG
Basic information
species | Glycine max |
transcript | GLYMA11G33480.1 |
intron # | 2 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA11G33480.1 (Glycine max), 3'ss of exon 2
lower sequence: LOC_Os03g50540.1 (Oryza sativa), 3'ss of exon 2
gtcaatattggactaaactttatttttttccctgtaaatctgattattgtgaatgcagattttattaaacatgttacacattggaaatcatattatgacttatttcttctaaaaacttattaaatactttaatctgagtgcc--tgaaagggctctggtggaatgtttctttctttcaacagGTGTGTTAGATTTGCAACAGAGGTTGCTGGGGTTCAGGATCTTGGCATGTTAGGTCGTGGCAGTGGAGAGGAGATTGGAACATATGTTGAAAAACTTTTG
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--------------------------------------------------------------------------------gtggtagct-tatcatcttatatcaaaacaaaatattgtctggctgcttct-tcaagctacccttggccggtttgtaactttgtatttcttgaaaaatgcagGTGCGTCAGATTTGCTAGTGAGGTTGCTGGTGTTCAAGACCTGGGTATGTTAGGTCGTGGCAGTGGTGAAGAAATTGGAACATATGTGGAGAAACTTATG
upper sequence: GLYMA11G33480.1 (Glycine max), 3'ss of exon 2
lower sequence: GRMZM2G126038_T01 (Zea mays), 3'ss of exon 2
gtcaatattggactaaactttatttttttccctgtaaatctgattattgtgaatgcagattttattaaacatgttacacattggaaatcatattatgacttatttcttctaaaaacttattaaatactttaatctgagtgcctgaaagggctctggtggaatgtttctttctttcaacagGTGTGTTAGATTTGCAACAGAGGTTGCTGGGGTTCAGGATCTTGGCATGTTAGGTCGTGGCAGTGGAGAGGAGATTGGAACATATGTTGAAAAACTTTTG
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--------------------------------------------------------------------tcttacattgcattg-acatcatgtgctaaatggttctctcta----cttgtgcaagctctgtatcc---tggctgatatg----tgatgctattttattttcaaattgcagGTGTGTAAGGTTTGCTACTGAGGTTGCTGGAGTTCAAGACCTTGGTATGTTAGGTCGTGGCAGTGGTGAAGAAATTGGAACATATGTTGAGAAACTTATG
upper sequence: GLYMA11G33480.1 (Glycine max), 3'ss of exon 2
lower sequence: GRMZM2G145854_T01 (Zea mays), 3'ss of exon 2
gtcaatattggactaaactttatttttttccctgtaaatctgattattgtgaatgcagattttattaaacatgttacacattggaaatcatattatgacttatttcttctaaaaacttat-taaatactttaatctgagtgcctgaaagggctctggtggaatgtttctttctttcaacagGTGTGTTAGATTTGCAACAGAGGTTGCTGGGGTTCAGGATCTTGGCATGTTAGGTCGTGGCAGTGGAGAGGAGATTGGAACATATGTTGAAAAACTTTTG
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--------------------------------------------------------------tttttaatttgttgt-catc-----tcgtgctgtagaacaattgttctcgcaacttgtgcaagttctgtacattgg----ctgata---------tgtgatgctatttttaaattgcagATGTGTCAGGTTTGCTACTGAGGTTGCTGGTGTTCAAGACCTTGGTATGTTAGGTCGTGGCAGTGGTGAAGAAATTGGAACATATGTTGAGAAACTTATG
upper sequence: GLYMA11G33480.1 (Glycine max), 3'ss of exon 2
lower sequence: AT5G37510.2 (Arabidopsis thaliana), 3'ss of exon 2
gtcaatattggactaaactttatttttttccctgtaaatctgattattgtgaatgcagattttattaaacatgttacacattggaaatcatattatgacttatttcttctaaaaacttattaaatactttaatctgagtgcctgaaagggctctggtggaatgtttctttctttcaacagGTGTGTTAGATTTGCAACAGAGGTTGCTGGGGTTCAGGATCTTGGCATGTTAGGTCGTGGCAGTGGAGAGGAGATTGGAACATATGTTGAAAAACTTTTG
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------------------------------------------------------------------------gttactaat--atagtttgcttatagtgtgatgttttagttaatgtgatagatacgctatcctg-----ttgattaggttttgtatgtataatgtttttgt-----agGTGTGTACGATTTGCTTCTGAAGTTGCTGGGGTTCAGGATCTTGGTATACTAGGTCGTGGTAGTGGAGAGGAAATTGGAACTTATGTTGAAAAGCTTATG
upper sequence: GLYMA11G33480.1 (Glycine max), 3'ss of exon 2
lower sequence: Vv14s0006g02020.t01 (Vitis vinifera), 3'ss of exon 2
gtcaatattggactaaactttatttttttccctgtaaatctgattattgtgaatgcagattttattaaacatgttacacattggaaatcatattatgacttatttcttctaaaaacttattaaatactttaatctgagtgcctgaaagggctctggtggaatgtttctttctttcaacagGTGTGTTAGATTTGCAACAGAGGTTGCTGGGGTTCAGGATCTTGGCATGTTAGGTCGTGGCAGTGGAGAGGAGATTGGAACATATGTTGAAAAACTTTTG
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--------------------------------------------------------------------tcacatta---atttcaactcttgatttgagagtatttgtct---ggtttagtgaa--gctgcatc---attctttacaagcttttgatgtga-acatgtttggtccaacagGTGTGTCAGGTTTGCAACTGAGGTTGCTGGGGTTCAGGATCTTGGCATGTTGGGCCGTGGCAGCGGAGAGGAAATTGGGACTTATGTTGAAAAACTTATGMapped 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|9986365|gb|BE660473.1|BE660473EST: CTTGGACCTCTGGTGAAGACTGTGATGACTCGGTGCATTCAATGTACAAG GTGTGTTAGATTTGCAACAGAGGTTGCTGGGGTTCAGGATCTTGGCATGTT
genomic: CTTGGACCTCTGGTGAAGACTGTGATGACTCGGTGCATTCAATGTACAAGgtcaatattg ... ctttcaacagGTGTGTTAGATTTGCAACAGAGGTTGCTGGGGTTCAGGATCTTGGCATGTT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.actttaatctgagtgcctgaaagggctctggtggaatgtttctttctttcaacagGTGTGTTAGATTTGCAACAGAGGTTGCTGGGGTTCAGGATCTTGGCATGTTAGGTCGTGGCAGTGGAGAGGAGATTGGAACATATGTTGAAAAACTTTTG
ctttaat putative branch site (score: 4)
tgtttctttctttc putative PPT
aatgttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtcaatattggactaaactttatttttttccctgtaaatctgattattgtgaatgcagattttattaaacatgttacacattggaaatcatattatgacttatttcttctaaaaacttattaaatactttaatctgagtgcctgaaagggctctggtggaatgtttctttctttcaacagGTGTGTTAGATTTGCAACAGAGGTTGCTGGGGTTCAGGATCTTGGCATGTTAGGTCGTGGCAGTGGAGAGGAGATTGGAACATATGTTGAAAAACTTTTG
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