Sequence
atgc intronic sequence ATGC exonic sequencegtatgtatgacgagcattcttaattggaaaatagacactttgttcttagcataatttttaaacattttatgatagttactaatttataactttagtaactcgatattcaagtttgttcaagcactccatagtgtaattcaattagctacatcataaatatctcttccctatgttttggtgtggtagGTTTTAGAAGTTCGTCCTGTGATTGATTGGAATAAAGGAAAAGCTGTTGAATTTTTACTTGAATCTCTAG
Basic information
species | Glycine max |
transcript | GLYMA17G14780.1 |
intron # | 7 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA17G14780.1 (Glycine max), 3'ss of exon 7
lower sequence: GRMZM2G178546_T01 (Zea mays), 3'ss of exon 8
gtatgtatgacgagcattcttaattggaaaatagacactttgttcttagcataatttttaaacattttatgatagttactaatttataactttagtaactcgatattcaagtttgttcaagcactccatagtgtaattcaattagctacatcataaatatctcttccctatgttttggtgtggtagGTTTTAGAAGTTCGTCCTGTGATTGATTGGAATAAAGGAAAAGCTGTTGAATTTTTACTTGAATCTCTAG------------------------------
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--------------------------------------------------------------------------gtgaggattatgca-ctgttgtaa---ggctttc---cttatcaaaatatt---tgttgtaaagcagtttga-attggattaatattcaatcac-actctccaatcc---agGTTTTTGAGGTCCGTCCTGTTATTGATTGGAACAAAGGTAAAGCTGTGGAGTTTTTACTTGAATCGCTTGGGCTCAGCGAGAGTGAAGATGTTCTCCCTA
upper sequence: GLYMA17G14780.1 (Glycine max), 3'ss of exon 7
lower sequence: AT4G12430.1 (Arabidopsis thaliana), 3'ss of exon 8
gtatgtatgacgagcattcttaattggaaaatagacactttgttcttagcataatttttaaacattttatgatagttactaatttataactttagtaactcgatattcaagtttgttcaagcactccatagtgta-attcaattagctacatcataaatatctcttccctatgttttggtgtggtagGTTTTAGAAGTTCGTCCTGTGATTGATTGGAATAAAGGAAAAGCTGTTGAATTTTTACTTGAATCTCTAG
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-------------------------------------------------------------------------------------------------------gtttgtgattagcttaagagatacttagcttacgtttaatcatcgg--tcttaatttcttgattatcattttttg-tgttaaagGTTTTAGAGGTTCGTCCTGTGATAGACTGGAACAAAGGAAGAGCGGTCGAGTTTCTATTAGAATCTCTCG
upper sequence: GLYMA17G14780.1 (Glycine max), 3'ss of exon 7
lower sequence: AT4G22590.1 (Arabidopsis thaliana), 3'ss of exon 7
gtatgtatgacgagcattcttaattggaaaatagacactttgttcttagcataatttttaaacattttatgatagttactaatttataactttagtaactcgatattcaagtttgttcaagcactccatagtgtaattcaattagctacatcataaatatctcttccctatgtt-ttggtgtggt-agGTTTTAGAAGTTCGTCCTGTGATTGATTGGAATAAAGGAAAAGCTGTTGAATTTTTACTTGAATCTCTAG------------------------------
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------------------------------------------------------------------------------------------------------------gtacttgtggaa-taaacatcactctggtttctcatattagatc-caaataccttaacatagttttgttgatatgatcagGTTTTAGAGGTGCGTCCTGTGATTGAGTGGAACAAAGGAAAAGCAGTAGAGTTTCTGTTAGAGTCTCTCGGATTAAGCAACAACGATGAGTTCCTCCCAA
upper sequence: GLYMA17G14780.1 (Glycine max), 3'ss of exon 7
lower sequence: Vv00s0233g00030.t01 (Vitis vinifera), 3'ss of exon 7
gtatgtatgacgagcattcttaattggaaaatagacactttgttcttagcataatttttaaacattttatgatagttactaatttataactttagtaactcgatattcaagtttgttcaagcactccatagtgtaattcaattagctacatcataaatatctcttccctatgttttggtgtggtagGTTTTAGAAGTTCGTCCTGTGATTGATTGGAATAAAGGAAAAGCTGTTGAATTTTTACTTGAATCTCTAG
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--------------------------------------------------gtaatattttctc-cctgaacacccttgcatattttt--cctcaagatatggagattttaggcagt---ggttcttattagta-aatttcatcaacttcat-------atgttcttcccatgctt---------agGTTTTAGAGGTCCGTCCTGTGATTGACTGGAACAAGGGGAAAGCAGTTGAATTTCTTCTCGAATCACTTG
upper sequence: GLYMA17G14780.1 (Glycine max), 3'ss of exon 7
lower sequence: Vv02s0154g00110.t01 (Vitis vinifera), 3'ss of exon 7
gtatgtatgacgagcattcttaattggaaaatagacactttgttcttagcataatttttaaacattttatgatagttactaatttataactttagtaactcgatattcaagtttgttcaagcactccatagtgtaattcaattagctacatcataaatatctcttccctatgttttggtgtggtagGTTTTAGAAGTTCGTCCTGTGATTGATTGGAATAAAGGAAAAGCTGTTGAATTTTTACTTGAATCTCTAG
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--------------------------------------------------------------------gtaatattttctccctgaacacccttgcatatttttcctcaag---atatggagattttaggcagtggttcttattagtaaatttcatcaacttcatatgt-tctttccatgct-tagGTTTTAGAGGTCCGTCCTGTAATTGACTGGAACAAGGGGAAAGCAGTTGAATTTCTTCTCGAATCACTTG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tgtaattcaattagctacatcataaatatctcttccctatgttttggtgtggtagGTTTTAGAAGTTCGTCCTGTGATTGATTGGAATAAAGGAAAAGCTGTTGAATTTTTACTTGAATCTCTAG
tacatcataaatat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtatgtatgacgagcattcttaattggaaaatagacactttgttcttagcataatttttaaacattttatgatagttactaatttataactttagtaactcgatattcaagtttgttcaagcactccatagtgtaattcaattagctacatcataaatatctcttccctatgttttggtgtggtagGTTTTAGAAGTTCGTCCTGTGATTGATTGGAATAAAGGAAAAGCTGTTGAATTTTTACTTGAATCTCTAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGTT