Sequence
atgc intronic sequence ATGC exonic sequence...tgtttctggtggtttatctgataacatagaagtgggaatttctcgacagtatttgtttttgtggttccttatagaggcttctgaatcgccccttgaacagGTTGATGACAAGCTTTACATATACCTTGAATATGTATCTGGAGGCTCCATACATAAACTTCTTCAAGAATATGGGCAATTTGGTGAACTAGTTATTCGTA
Basic information
species | Glycine max |
transcript | GLYMA10G37730.1 |
intron # | 6 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA10G37730.1 (Glycine max), 3'ss of exon 6
lower sequence: LOC_Os02g44642.1 (Oryza sativa), 3'ss of exon 5
tgtttctggtggtttatctgataacatagaagtgggaatttctcgacagtatttgtttttgtggtt-ccttatagaggcttctgaatcgcccctt------gaacagGTTGATGACAAGCTTTACATATACCTTGAATATGTATCTGGAGGCTCCATACATAAACTTCTTCAAGAATATGGGCAATTTGGTGAACTAGTTATTCGTA
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------ccacattctgcagaattttacgaacttcacttttgcttg-cactcctgactcctctgtttactttaaaaataactatacactatccatttattcaaaacagGTTGATGATAAACTTTATATATACCTGGAGTATGTTTCTGGTGGATCCATCCATAAACTACTCCAGGAGTATGGGCAATTTGGTGAACCTGCTATCCGCA
upper sequence: GLYMA10G37730.1 (Glycine max), 3'ss of exon 6
lower sequence: LOC_Os04g47240.2 (Oryza sativa), 3'ss of exon 5
--tgtttc-tggtggtttatctgataacatagaagtgggaatttctcgacagtatttgtttttgtggttccttatagaggcttctgaatcgccccttga-acagGTTGATGACAAGCTTTACATATACCTTGAATATGTATCTGGAGGCTCCATACATAAACTTCTTCAAGAATATGGGCAATTTGGTGAACTAGTTATTCGTA
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gaagttgcatgatagcatctaggatttcattaatg-agttatttatgtaccacttttgattttct---tttttggcttcacttattatttgtgccccaatacagGTTGATGATAAGCTTTATATATACTTGGAGTATGTATCTGGTGGATCTATCCATAAACTTCTACAAGAGTATGGACAGCTTGGTGAACAAGCAATACGCA
upper sequence: GLYMA10G37730.1 (Glycine max), 3'ss of exon 6
lower sequence: GRMZM2G093316_T01 (Zea mays), 3'ss of exon 5
tgtttctggtggtttatctgataacatagaagtgggaatttctcgacagtatttgtttttgtggttcctt-atagaggcttctgaatcgccccttgaacagGTTGATGACAAGCTTTACATATACCTTGAATATGTATCTGGAGGCTCCATACATAAACTTCTTCAAGAATATGGGCAATTTGGTGAACTAGTTATTCGTA
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tagaattgcattcttttttggacggaaggagtacatagttatttttcctcatgcatctt-gtgattattcgaaatacatctccatattatattgaaaacagGTTGATGATAAGCTTTACATATACCTGGAGTATGTTTCTGGTGGATCTATACATAAGCTTCTCCAAGAGTATGGTCAGTTTGGTGAACAGGCCATTCGCA
upper sequence: GLYMA10G37730.1 (Glycine max), 3'ss of exon 6
lower sequence: AC209208.3_FGT001 (Zea mays), 3'ss of exon 4
-tgtttctggtggtttatctgataacatagaagtgggaatttctcgacagtatttgtttttgtggttcct-tatagaggcttctgaatcgccccttgaacagGTTGATGACAAGCTTTACATATACCTTGAATATGTATCTGGAGGCTCCATACATAAACTTCTTCAAGAATATGGGCAATTTGGTGAACTAGTTATTCGTA
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tagaatcacattcttttctggatgg-agggagtacatagttacttttccccatgcatctt-gtgattcttctaaatgcatctccatatattatacaaaatagGTTGATGATAAGCTTTACATATACCTGGAGTATGTTTCTGGTGGATCTATACATAAGCTTCTCCAAGAGTATGGACAGTTTGGTGAACAAGCCATTTGCA
upper sequence: GLYMA10G37730.1 (Glycine max), 3'ss of exon 6
lower sequence: GRMZM2G175504_T01 (Zea mays), 3'ss of exon 4
---tgtttctggtggtttatctgataacatagaagtgggaatttctcgacagtatttgtttttgtggttccttatagaggcttctgaatcgccccttgaacagGTTGATGACAAGCTTTACATATACCTTGAATATGTATCTGGAGGCTCCATACATAAACTTCTTCAAGAATATGGGCAATTTGGTGAACTAGTTATTCGTA
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gagagttcacaacagcttgtcacatatcattaa--tagggttatggatgcattattttcatttttaggcatgaacttatacattatgtttgcccaa-aattagGTTGAAGATAAACTTTACATATATTTGGAATATGTTTCTGGTGGATCCATACATAAACTTCTACAAGAATATGGACAGCTTGGTGAACCAGCAATACGCA
upper sequence: GLYMA10G37730.1 (Glycine max), 3'ss of exon 6
lower sequence: Vv16s0050g00770.t01 (Vitis vinifera), 3'ss of exon 4
tgtttctggtggtttatctgataacatagaagtgggaatttc--tcgacagtatttgtttttgtggttc---cttatagaggcttctgaatcgccccttgaacagGTTGATGACAAGCTTTACATATACCTTGAATATGTATCTGGAGGCTCCATACATAAACTTCTTCAAGAATATGGGCAATTTGGTGAACTAGTTATTCGTA
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----tttgcaatattgttgcatcatgtgcaatattatgtttcagttggcacttttggttatcgtcttttgtactgatataa-cctcccaattattccatgaacagGTTGGTGACAAACTTTATATATACTTGGAGTATGTATCTGGTGGCTCCATCTATAAACTTCTTCAAGAATATGGCCAACTTGGTGAACTAGCAATTCGTA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.acagtatttgtttttgtggttccttatagaggcttctgaatcgccccttgaacagGTTGATGACAAGCTTTACATATACCTTGAATATGTATCTGGAGGCTCCATACATAAACTTCTTCAAGAATATGGGCAATTTGGTGAACTAGTTATTCGTA
tcgcccctt CT-rich tract
atttgttttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tgtttctggtggtttatctgataacatagaagtgggaatttctcgacagtatttgtttttgtggttccttatagaggcttctgaatcgccccttgaacagGTTGATGACAAGCTTTACATATACCTTGAATATGTATCTGGAGGCTCCATACATAAACTTCTTCAAGAATATGGGCAATTTGGTGAACTAGTTATTCGTA
- - - tggtggt
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tggttcc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - gcttctg